Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A23 F110 I1 R1
|
27 |
27.0 |
575272 |
98.6% |
567218 |
141.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
USA300TCH1516_ALE |
1,513,930 |
A→T |
L413F (TTA→TTT) |
USA300HOU_RS07375 → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | USA300TCH1516_ALE | 1,513,930 | 0 | A | T | 100.0%
| 38.5
/ NA
| 12 | L413F (TTA→TTT) | USA300HOU_RS07375 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base T (7/5); total (7/5) |
GCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATG‑TTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTA > USA300TCH1516_ALE/1513811‑1514024
|
gCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATG‑TTTTATTGTATTAGGATTATTAATg < 2:77149/141‑1 (MQ=255)
tagtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATG‑TTTTATTGTATTAGGATTATTAATGCCattat < 1:209654/141‑1 (MQ=255)
tagtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATG‑TTTTATTGTATTAGGATTATTAATGCCattat < 2:166912/141‑1 (MQ=255)
tagtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGAGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATG‑TTTTATTGTATTAGGATTATTAATGCCattat < 2:247846/141‑1 (MQ=255)
gtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATG‑TTTTATTGTATTAGGATTATTAATGCCATTAttt > 2:167261/1‑141 (MQ=255)
ggCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATG‑TTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCa > 1:217831/1‑141 (MQ=255)
gggTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAACACAACCGAATCTCTATCACTCCTAAACTGATTTTACT‑AACTAGTATTATTAATGCAATTATTTGGATTATCACTTATc > 1:186441/1‑141 (MQ=255)
gggTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATG‑TTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATc < 1:175321/141‑1 (MQ=255)
aGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATG‑TTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGAtcgtcg > 2:168279/1‑141 (MQ=255)
aGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATG‑TTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGAtcgtcg > 2:92243/1‑141 (MQ=255)
tACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAAGATG‑TTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTg > 1:247024/1‑141 (MQ=255)
cacaTCGCGTAAAAAAACCAGCATCTATATCACTCATATTATG‑TTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTa > 1:152319/1‑141 (MQ=255)
|
GCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATG‑TTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTA > USA300TCH1516_ALE/1513811‑1514024
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
